mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-11 04:33:10 +00:00
52 lines
1.5 KiB
YAML
52 lines
1.5 KiB
YAML
|
name: "happy"
|
||
|
|
description: Hap.py is a tool to compare diploid genotypes at haplotype level. Rather than comparing VCF records row by row, hap.py will generate and match alternate sequences in a superlocus. A superlocus is a small region of the genome (sized between 1 and around 1000 bp) that contains one or more variants.
|
||
|
|
keywords:
|
||
|
|
- happy
|
||
|
|
- benchmark
|
||
|
|
- haplotype
|
||
|
|
tools:
|
||
|
|
- "happy":
|
||
|
|
description: "Haplotype VCF comparison tools"
|
||
|
|
homepage: "https://www.illumina.com/products/by-type/informatics-products/basespace-sequence-hub/apps/hap-py-benchmarking.html"
|
||
|
|
documentation: "https://github.com/Illumina/hap.py"
|
||
|
|
tool_dev_url: "https://github.com/Illumina/hap.py"
|
||
|
|
doi: ""
|
||
|
|
licence: "['BSD-2-clause']"
|
||
|
|
|
||
|
|
input:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- truth_vcf:
|
||
|
|
type: file
|
||
|
|
description: gold standard VCF file
|
||
|
|
pattern: "*.{vcf,vcf.gz}"
|
||
|
|
- query_vcf:
|
||
|
|
type: file
|
||
|
|
description: VCF file to query
|
||
|
|
pattern: "*.{vcf,vcf.gz}"
|
||
|
|
- bed:
|
||
|
|
type: file
|
||
|
|
description: BED file
|
||
|
|
pattern: "*.bed"
|
||
|
|
- fasta:
|
||
|
|
type: file
|
||
|
|
description: FASTA file of the reference genome
|
||
|
|
pattern: "*.{fa,fasta}"
|
||
|
|
|
||
|
|
output:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- versions:
|
||
|
|
type: file
|
||
|
|
description: File containing software versions
|
||
|
|
pattern: "versions.yml"
|
||
|
|
|
||
|
|
authors:
|
||
|
|
- "@nvnieuwk"
|